Plant FIBer expression Database

External link	JGI Phytozome v13 [genome browser] Popgenie AspWood
Symbol
Arabidopsis homologues Show only best Show top 10	Locus ID BLAST score/e-value TF class Alias TAIR10 short description AT3G57520 827 / 0 RS2, ATSIP2 raffinose synthase 2, seed imbibition 2 (.1.2.3) AT1G55740 717 / 0 RS1, ATSIP1 raffinose synthase 1, seed imbibition 1 (.1) AT5G20250 660 / 0 RS6, DIN10 raffinose synthase 6, DARK INDUCIBLE 10, Raffinose synthase family protein (.1.2.3.4) AT5G40390 502 / 2e-167 RS5, SIP1 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) AT4G01970 287 / 8e-85 RS4, ATSTS raffinose synthase 4, stachyose synthase (.1)
Paralogs Show only best Show top 10	Gene ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Potri.016G002300 [exp] 927 / 0 AT3G57520 758 / 0.0 raffinose synthase 2, seed imbibition 2 (.1.2.3) Potri.006G052800 [exp] 804 / 0 AT3G57520 1290 / 0.0 raffinose synthase 2, seed imbibition 2 (.1.2.3) Potri.016G054700 [exp] 792 / 0 AT3G57520 1278 / 0.0 raffinose synthase 2, seed imbibition 2 (.1.2.3) Potri.011G166700 [exp] 749 / 0 AT1G55740 1154 / 0.0 raffinose synthase 1, seed imbibition 1 (.1) Potri.006G065700 [exp] 686 / 0 AT5G20250 1154 / 0.0 raffinose synthase 6, DARK INDUCIBLE 10, Raffinose synthase family protein (.1.2.3.4) Potri.018G126400 [exp] 676 / 0 AT5G20250 1218 / 0.0 raffinose synthase 6, DARK INDUCIBLE 10, Raffinose synthase family protein (.1.2.3.4) Potri.T124908 [exp] 523 / 5e-176 AT5G40390 1055 / 0.0 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) Potri.007G123400 [exp] 513 / 7e-172 AT5G40390 1147 / 0.0 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) Potri.017G036700 [exp] 506 / 5e-169 AT5G40390 1118 / 0.0 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1)
Flax homologues Show only best Show top 10	Locus ID BLAST score/e-value At best hit BLAST score/e-value TAIR10 short description Lus10007537 [exp] 793 / 0 AT3G57520 1235 / 0.0 raffinose synthase 2, seed imbibition 2 (.1.2.3) Lus10017516 [exp] 680 / 0 AT5G20250 1145 / 0.0 raffinose synthase 6, DARK INDUCIBLE 10, Raffinose synthase family protein (.1.2.3.4) Lus10027679 [exp] 519 / 7e-174 AT5G40390 1040 / 0.0 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) Lus10022240 [exp] 315 / 5e-99 AT5G40390 744 / 0.0 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) Lus10022241 [exp] 196 / 4e-57 AT5G40390 342 / 2e-112 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) Lus10008771 [exp] 153 / 3e-42 AT5G40390 339 / 1e-112 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) Lus10041370 [exp] 50 / 8e-07 AT5G40390 71 / 8e-15 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) Lus10014902 [exp] 46 / 8e-05 AT5G55500 254 / 2e-81 "beta-1,2-xylosyltransferase", ARABIDOPSIS THALIANA BETA-1,2-XYLOSYLTRANSFERASE, beta-1,2-xylosyltransferase (.1) Lus10039945 [exp] 0 / 1 AT5G40390 164 / 8e-58 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1) Lus10039946 [exp] 0 / 1 AT5G40390 123 / 9e-38 seed imbibition 1-like, raffinose synthase 5, Raffinose synthase family protein (.1)
PFAM info	Clan ID Clan name Pfam ID Pfam name Pfam description CL0058 [poplar] [flax] Glyco_hydro_tim PF05691 [poplar] [flax] Raffinose_syn Raffinose synthase or seed imbibition protein Sip1
Representative CDS sequence Show only first row Show all	>Potri.015G086400.1 pacid=42774938 polypeptide=Potri.015G086400.1.p locus=Potri.015G086400 ID=Potri.015G086400.1.v4.1 annot-version=v4.1 ATGACAATCAAAGCCACGCCTATCATCAAAGATGGCTGCCTCATGGTGAGAGGCAAGGTGGTTCTGAGCAGAGTTCCACAAAACATTCTTGTTTCTCCGG CAAGCAATGGCTCTGCTTTCTTTGGTGCTACATCTCCATCTCCTAGTTCTCGCCATGTGTTTAGCCTTGGAGTTCTTGAGAAGTACAGGTTCTTGTGCCT TTTTAGAGTCAAAATCTGGTGGATGATACCTCGTGTAGGGAAATCCGGTAGTGAAATTCCCATGGAAACTCAAATGCTTTTGTTGGAAGCAACAGAGGAA TCTGCCCTGAATGACGAGGTGAATTCTTCTGAAACATCGACAGATAACACTTTCTACATTCTTTTCTTGCCTGTCTTGGATGGACTATTTCGATCTAGTT TGCAAGGAACTTCGGAAAATGAGCTCCACTTCTGCGTTGAAAGCGGAGATGCTAATGTCCAAACCTCACAAGCACTTGAAGCAGTATTTGTGAACTCAGG GGAGAACCCTTTTGAGCTTATTAAGAATTCTGTCAAGATACTGGAGCAACACAAGGGGACCTTTTGCCACATTGAGAACAAGAAGATTCCTGCACATTTA GACTGGTTTGGCTGGTGTACTTGGGATGCTTTTTACACTCAAGTAAATCCACAAGGAATCAAAGAGGGTCTTCAAAGTTTCTTAGAAGGTGGGTGTTCAC CGAAGTTTCTTATTATTGATGATGGATGGCAAGACACAGTGAATGAATTTCGCAAGGAAGGTGAACCTCTTATCGAAGGGACACAGTTTGCTACTAGATT GGTAGATATAAAAGAAAATGGAAAATTCAGAAGTTCAGGTCCAGATGAAGGCTGCACCGATTTGCATGAATTTATTGATACCATCAAAGAGAAATATGGA TTAAAATTTGTTTATATGTGGCACGCTTTAGCTGGTTATTGGGGAGGGGTTCTTCCATCATCTGATTCAATGAAAAAGTACAACCCGAAACTTGTATATC CAATTCAGTCACCTGGTAATGTGGGGAACATGAGAGACATTGCAATGGACAGCTTGGAGAAATATGGAGTTGGAGTCATTGATCCCAGTAAGATATTTGA TTTCTACAATGATCTTCATAGCTATCTGGCAAGCAATGGTGTAGATGGAGTCAAGGTGGACGTCCAGAATCTGATTGAAACTTTAGGTTCTGGATGTGGA GGTCGAGTGACGTTGACTAGACAGTATCAGGAAGCACTTGAGAGATCTATTTCAAGAAACTTTAAAGAAAATAATCTAATTTGTTGCATGAGTCACAACT CTGACTCAATTTACAGTTCGAAGAGAAGTGCAATTGCAAGAGCATCAGAGGATTTCATGCCAAGAGAGCCAACATTTCAGACCTTGCACATTGCGTCTGT AGCTTTCAACAGCTTTCTTCTTGGGGAGATTGTTGTTCCAGACTGGGACATGTTCCATAGCAAACATGATACCGCTGATTTCCATGGTGCTGCAAGAGCA TTGGGTGGATGTGCAGTATATGTAAGTGACAAGCCAGGCATTCATGACTTCAAAATCCTTAAGAAGCTCGTGTTGCCTGACGGGTCTATCCTGAGAGCTA GACATGCTGGCCGTCCCACAAGAGATTGCTTATTTGAAGATCCTGTCATGGATGCGAAAAGTTTGTTGAAGATATGGAACTTGAACAAGTTAACTGGGGT CATCGGTGTTTTTAATTGCCAAGGAGCAGGAAGTTGGCCAATGAAACAAGAAGCTGAAGAAATACCTACTGTGCCTTCCGGGCCTTCATCCCTTTCAGGT CATGTGAGTCCTATTGATGTTGAATTTCTCGACGATATTGCCGGTGAAGATTGGAATGGAGATTGTGCAATCTATGCTTTCAATTCAGGATCTCTTTCCA TGCTGCCAAAGAAAGGGATTCTTGAGGTGTCCCTGACCACTCTAAAATACGAGATATATACCATCTCTCCAATTAAGGTTTTTGGTCAGAATCTTCAGTT TTCTCCGATAGGATTGCTTGACATGTACAACTCAGGAGGAGCAGTGGAAGCTGTGAACTGCATTATCGATGTTTCATCTTACACAATCAAAGTCAATGGC CGAGGCGGTGGCCGATTTGGAGCCTACTCCAACACTAAACCAACCTTTTGCAGGGTGGACATGAAAGAAGAAGAGTTCACTTACAACGACAAAAATGGAT TATTGATAGTCAAACTTGAATGCACAGGCAATTTAAGAGAGATTGAATTCATATATTAG
AA sequence Show only first row Show all	>Potri.015G086400.1 pacid=42774938 polypeptide=Potri.015G086400.1.p locus=Potri.015G086400 ID=Potri.015G086400.1.v4.1 annot-version=v4.1 MTIKATPIIKDGCLMVRGKVVLSRVPQNILVSPASNGSAFFGATSPSPSSRHVFSLGVLEKYRFLCLFRVKIWWMIPRVGKSGSEIPMETQMLLLEATEE SALNDEVNSSETSTDNTFYILFLPVLDGLFRSSLQGTSENELHFCVESGDANVQTSQALEAVFVNSGENPFELIKNSVKILEQHKGTFCHIENKKIPAHL DWFGWCTWDAFYTQVNPQGIKEGLQSFLEGGCSPKFLIIDDGWQDTVNEFRKEGEPLIEGTQFATRLVDIKENGKFRSSGPDEGCTDLHEFIDTIKEKYG LKFVYMWHALAGYWGGVLPSSDSMKKYNPKLVYPIQSPGNVGNMRDIAMDSLEKYGVGVIDPSKIFDFYNDLHSYLASNGVDGVKVDVQNLIETLGSGCG GRVTLTRQYQEALERSISRNFKENNLICCMSHNSDSIYSSKRSAIARASEDFMPREPTFQTLHIASVAFNSFLLGEIVVPDWDMFHSKHDTADFHGAARA LGGCAVYVSDKPGIHDFKILKKLVLPDGSILRARHAGRPTRDCLFEDPVMDAKSLLKIWNLNKLTGVIGVFNCQGAGSWPMKQEAEEIPTVPSGPSSLSG HVSPIDVEFLDDIAGEDWNGDCAIYAFNSGSLSMLPKKGILEVSLTTLKYEIYTISPIKVFGQNLQFSPIGLLDMYNSGGAVEAVNCIIDVSSYTIKVNG RGGGRFGAYSNTKPTFCRVDMKEEEFTYNDKNGLLIVKLECTGNLREIEFIY

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DESeq2's median of ratios [POPLAR]

Mapped by: StringTie Salmon Order by: Tissue Experiment Show only core collection Show again Show schematic diagram

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Coexpressed genes

Compare expression of checked genes Schematic diagram [FLAX] Schematic diagram [POPLAR]

*If you select 4 or less genes and then press "compare expression", expression will be shown as a graph. If you select more than 4 genes, expresion will be shown as a heat map.
*Color represents relative expression level among samples for each gene.

At best	At TF class	At alias	At description		Locus	MR	r	Symbol	NWA:WT	NWB:WT	NWA:OE-ARK2	NWB:OE-ARK2	NWA:miRNA-ARK2	NWB:miRNA-ARK2	NW 0hr	WT H20	WT-NW	TUA1dEY NW	TUA1dEY+TUB15 NW	TUA1dY+TUB9 NW	Pde NW	NWA:WT GA	NWBWT GA	TW:WT	TW:WT GA	NWA:OE-ARK2 GA	NWB:OE-ARK2 GA	TW:OE-ARK2	TW:OE-ARK2 GA	NWA:miRNA-ARK2 GA	NWB:miRNA-ARK2 GA	TW:miRNA-ARK2	TW:miRNA-ARK2 GA	TW 2hr	TW 8hr	TW 24hr	TW 48hr	TW 96hr	TW 336hr	WT ACC	35S::etr1-1 H20	35S::etr1-1 ACC	LMX5::etr1-1 H20	LMX5::etr1-1 ACC	WT-TW	TUA1dEY TW	TUA1dEY+TUB15 TW	TUA1dY+TUB9 TW	Pde TW	OW:WT	OW:WT GA	OW:OE-ARK2	OW:OE-ARK2 GA	OW:miRNA-ARK2	OW:miRNA-ARK2 GA	OW 2hr	OW 8hr	OW 24hr	OW 48hr	OW 96hr	OW 336hr	Root CTR	Root LongCold	Root LongDrougt	Root LongHeat	Root LongSalt	Root ShortCold	Root ShortDrougt	Root ShortHeat	Root ShortSalt	Ptr root	Leaf CTR	Leaf LongCold	Leaf LongDrougt	Leaf LongHeat	Leaf LongSalt	Leaf ShortCold	Leaf ShortDrougt	Leaf ShortHeat	Leaf ShortSalt	Ptr leaf	Stem CTR	Stem LongCold	Stem LongDrougt	Stem LongHeat	Stem LongSalt	Stem ShortCold	Stem ShortDrougt	Stem ShortHeat	Stem ShortSalt	Ptr shoot	Ptr xylem	Ptr phloem	Ptr fiber	Ptr vessel	Ptr fiber vessel ray
AT3G57520		RS2, ATSIP2	raffinose synthase 2, seed imb...		Potri.015G086400 [exp]	0	1
AT5G38220			alpha/beta-Hydrolases superfam...		Potri.017G117633 [exp]	13.41	0.6483
AT2G05760			Xanthine/uracil permease famil...		Potri.014G157800 [exp]	18.27	0.7171
AT1G70210		ATCYCD1;1, CYCD...	CYCLIN D1;1 (.1)		Potri.010G095200 [exp]	28.61	0.6615	Pt-CYCD1.1
AT3G15430			Regulator of chromosome conden...		Potri.001G402800 [exp]	34.49	0.6240
AT5G48920		TED7	tracheary element differentiat...		Potri.007G108100 [exp]	49.95	0.6618
AT5G53890		AtPSKR2	phytosylfokine-alpha receptor ...		Potri.001G398500 [exp]	61.31	0.6192
AT3G57520		RS2, ATSIP2	raffinose synthase 2, seed imb...		Potri.016G054700 [exp]	68.70	0.6553
					Potri.009G034951 [exp]	70.53	0.6362
AT2G22540	MADS	AGL22, SVP	SHORT VEGETATIVE PHASE, AGAMOU...		Potri.017G044500 [exp]	74.41	0.6025
AT2G44150		SDG7, ASHH3	SET DOMAIN-CONTAINING PROTEIN ...		Potri.017G000400 [exp]	81.42	0.6350

Compare expression of checked genes

Potri.015G086400 coexpression network

*The number of genes in the network is adjusted within 50 genes.
*Gene name represents symbol(s) of closest Arabidopsis gene if symbol(s) for the gene itself doesn't exist.
*Circle diameter represents the number of connection with other genes within this network.
*Color for gene name represents subnetwork based on the result of network clustering.